All issues

Search results

perf: gvl.concat holds one file handle per input — exceeds ulimit -n when merging many shards

Status: Open.

#345In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 31, 2026

test: gvl.concat has no svar2 coverage — add an .svar2 concat fixture

Status: Open.

#343In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 31, 2026

_write_from_svar (SVAR1) ignores max_mem

Status: Open.

#342In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 31, 2026

Shrink the SVAR2 on-disk range cache below 16 bytes/entry

Status: Open.

#341In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 31, 2026

perf: bulk dataset IO should use buffered read/write, not np.memmap — ~5-6x slower on NFSv3

Status: Open.

#338In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 31, 2026

gvl.write hardlinks variants.arrow into the dataset with no integrity guard

Status: Open.

#337In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 31, 2026

Dataset.open fails with PermissionError when the recorded absolute .svar path is unreadable, instead of falling back to the sibling .svar

Status: Open.

#335In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 30, 2026

Flaky: spawn-child tests time out when import genvarloader is slower than their hard-coded budget

type: bugSomething isn't workingSomething isn't working

Status: Open.

#332In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 29, 2026

streaming: SVAR1 per-call FORMAT var_fields copied whole into Rust (CSR/cohort-scale) instead of mmapped

type: enhancementNew feature or requestNew feature or request

Status: Open.

#329In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 27, 2026

streaming: var_fields ride-alongs for with_seqs("variant-windows")

type: enhancementNew feature or requestNew feature or request

Status: Open.

#328In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 27, 2026

streaming: symmetric decline for multi-value INFO/AF (streaming vs written parity)

type: enhancementNew feature or requestNew feature or request

Status: Open.

#324In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 23, 2026

double_buffered variant-windows: make Hartwig config fit (Layer 1 estimate fix or grow-or-split) — follow-up to #315

type: bugSomething isn't workingSomething isn't working

Status: Open.

#322In mcvickerlab/GenVarLoader;

· d-laub opened on Jul 22, 2026